Gene Page: PSMD4

Summary ?
GeneID5710
SymbolPSMD4
SynonymsAF|AF-1|ASF|MCB1|Rpn10|S5A|pUB-R5
Descriptionproteasome 26S subunit, non-ATPase 4
ReferenceMIM:601648|HGNC:HGNC:9561|Ensembl:ENSG00000159352|HPRD:03386|Vega:OTTHUMG00000012349
Gene typeprotein-coding
Map location1q21.3
Sherlock p-value0.003
Fetal beta0.629
eGeneCaudate basal ganglia
Hippocampus

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:PGCnpGenome-wide Association StudyGWAS
GSMA_IGenome scan meta-analysisPsr: 0.0235 
GSMA_IIAGenome scan meta-analysis (All samples)Psr: 0.00814 

Section I. Genetics and epigenetics annotation


Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

Gene expression during devlopment (BrainCloud)

Footnote:
A total of 269 time points ploted, with n=38 fetal samples (x=1:38). Each triangle represents one time point.

Gene expression of temporal and spatial changes (BrainSpan)

Footnote:
SC: sub-cortical regions; SM: sensory-motor regions; FC: frontal cortex; and TP: temporal-parietal cortex
ST1: fetal (13 - 26 postconception weeks), ST2: early infancy to late childhood (4 months to 11 years), and ST3: adolescence to adulthood (13 - 23 years)
The bar shown representes the lower 25% and upper 25% of the expression distribution.

Top co-expressed genes in brain regions

Top 10 positively co-expressed genes
GenePearson's Correlation Spearman's Correlation
MAS10.740.66
ANKRD290.720.63
BTBD30.720.71
WASL0.690.65
AC110760.20.690.67
SORT10.690.67
DGKG0.680.67
PLEKHA20.670.64
RNF1280.670.70
SLC45A40.670.59
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
BCL7C-0.36-0.49
SH3BP2-0.32-0.40
SH2B2-0.31-0.40
KIAA1949-0.31-0.24
TUBB2B-0.30-0.36
GTF3C6-0.30-0.33
FADS2-0.29-0.26
SNHG12-0.29-0.40
PPP1R14B-0.29-0.43
C9orf46-0.29-0.37

Section III. Gene Ontology annotation

Molecular functionGO termEvidenceNeuro keywordsPubMed ID
GO:0005515protein bindingIPI17353931 |17662948 |17891176 
Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0031145anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic processEXP11285280 
GO:0051436negative regulation of ubiquitin-protein ligase activity during mitotic cell cycleEXP15029244 
GO:0051437positive regulation of ubiquitin-protein ligase activity during mitotic cell cycleEXP12791267 
Cellular componentGO termEvidenceNeuro keywordsPubMed ID
GO:0000502proteasome complexTAS8811196 
GO:0005829cytosolIEA-

Section IV. Protein-protein interaction annotation

InteractorsAliases BOfficial full name BExperimentalSourcePubMed ID
ID1ID | bHLHb24inhibitor of DNA binding 1, dominant negative helix-loop-helix proteinin vitro
in vivo
Two-hybrid		BioGRID9235903 
MYOD1MYF3 | MYOD | PUM | bHLHc1myogenic differentiation 1-HPRD,BioGRID9235903 
NEDD8FLJ43224 | MGC104393 | MGC125896 | MGC125897 | Nedd-8neural precursor cell expressed, developmentally down-regulated 8-HPRD,BioGRID11585840 
NUB1BS4 | NUB1L | NYREN18negative regulator of ubiquitin-like proteins 1-HPRD,BioGRID11585840 
PSMD10dJ889N15.2 | p28proteasome (prosome, macropain) 26S subunit, non-ATPase, 10Affinity Capture-MSBioGRID17353931 
PSMD13HSPC027 | Rpn9 | S11 | p40.5proteasome (prosome, macropain) 26S subunit, non-ATPase, 13Affinity Capture-MSBioGRID17353931 
PSMD6KIAA0107 | Rpn7 | S10 | SGA-113M | p44S10proteasome (prosome, macropain) 26S subunit, non-ATPase, 6Affinity Capture-MSBioGRID17353931 
RAD23AHHR23A | MGC111083RAD23 homolog A (S. cerevisiae)-HPRD10488153 |11827521|12970176 
RAD23AHHR23A | MGC111083RAD23 homolog A (S. cerevisiae)Reconstituted Complex
Two-hybrid		BioGRID10488153 |12970176 
RAD23BHHR23B | HR23B | P58RAD23 homolog B (S. cerevisiae)-HPRD,BioGRID10488153 |11827521 
RASSF8C12orf2 | HoJ-1Ras association (RalGDS/AF-6) domain family (N-terminal) member 8Two-hybridBioGRID16189514 
TCF3E2A | ITF1 | MGC129647 | MGC129648 | bHLHb21transcription factor 3 (E2A immunoglobulin enhancer binding factors E12/E47)-HPRD,BioGRID9235903 
TRAF6MGC:3310 | RNF85TNF receptor-associated factor 6-HPRD14743216 
UBQLN2CHAP1 | CHAP1/DSK2 | Dsk2 | HRIHFB2157 | LIC-2 | N4BP4 | PLIC-2 | PLIC2 | RIHFB2157ubiquilin 2-HPRD11827521 


Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
KEGG PROTEASOME 4828All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY WNT 6541All SZGR 2.0 genes in this pathway
REACTOME CROSS PRESENTATION OF SOLUBLE EXOGENOUS ANTIGENS ENDOSOMES 4829All SZGR 2.0 genes in this pathway
REACTOME ANTIGEN PROCESSING CROSS PRESENTATION 7648All SZGR 2.0 genes in this pathway
REACTOME ER PHAGOSOME PATHWAY 6140All SZGR 2.0 genes in this pathway
REACTOME CELL CYCLE 421253All SZGR 2.0 genes in this pathway
REACTOME ORC1 REMOVAL FROM CHROMATIN 6737All SZGR 2.0 genes in this pathway
REACTOME DOWNSTREAM SIGNALING EVENTS OF B CELL RECEPTOR BCR 9766All SZGR 2.0 genes in this pathway
REACTOME ACTIVATION OF NF KAPPAB IN B CELLS 6443All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY THE B CELL RECEPTOR BCR 12690All SZGR 2.0 genes in this pathway
REACTOME P53 INDEPENDENT G1 S DNA DAMAGE CHECKPOINT 5131All SZGR 2.0 genes in this pathway
REACTOME CDK MEDIATED PHOSPHORYLATION AND REMOVAL OF CDC6 4827All SZGR 2.0 genes in this pathway
REACTOME METABOLISM OF AMINO ACIDS AND DERIVATIVES 200136All SZGR 2.0 genes in this pathway
REACTOME REGULATION OF ORNITHINE DECARBOXYLASE ODC 4933All SZGR 2.0 genes in this pathway
REACTOME REGULATION OF APOPTOSIS 5834All SZGR 2.0 genes in this pathway
REACTOME CELL CYCLE MITOTIC 325185All SZGR 2.0 genes in this pathway
REACTOME CELL CYCLE CHECKPOINTS 12470All SZGR 2.0 genes in this pathway
REACTOME CYCLIN E ASSOCIATED EVENTS DURING G1 S TRANSITION 6540All SZGR 2.0 genes in this pathway
REACTOME P53 DEPENDENT G1 DNA DAMAGE RESPONSE 5735All SZGR 2.0 genes in this pathway
REACTOME M G1 TRANSITION 8145All SZGR 2.0 genes in this pathway
REACTOME G1 S TRANSITION 11263All SZGR 2.0 genes in this pathway
REACTOME CDT1 ASSOCIATION WITH THE CDC6 ORC ORIGIN COMPLEX 5631All SZGR 2.0 genes in this pathway
REACTOME SYNTHESIS OF DNA 9253All SZGR 2.0 genes in this pathway
REACTOME AUTODEGRADATION OF THE E3 UBIQUITIN LIGASE COP1 5130All SZGR 2.0 genes in this pathway
REACTOME METABOLISM OF MRNA 284128All SZGR 2.0 genes in this pathway
REACTOME METABOLISM OF RNA 330155All SZGR 2.0 genes in this pathway
REACTOME MITOTIC G1 G1 S PHASES 13779All SZGR 2.0 genes in this pathway
REACTOME REGULATION OF MITOTIC CELL CYCLE 8546All SZGR 2.0 genes in this pathway
REACTOME MITOTIC M M G1 PHASES 17298All SZGR 2.0 genes in this pathway
REACTOME ASSEMBLY OF THE PRE REPLICATIVE COMPLEX 6536All SZGR 2.0 genes in this pathway
REACTOME REGULATION OF MRNA STABILITY BY PROTEINS THAT BIND AU RICH ELEMENTS 8450All SZGR 2.0 genes in this pathway
REACTOME DESTABILIZATION OF MRNA BY AUF1 HNRNP D0 5331All SZGR 2.0 genes in this pathway
REACTOME DNA REPLICATION 192110All SZGR 2.0 genes in this pathway
REACTOME APOPTOSIS 14894All SZGR 2.0 genes in this pathway
REACTOME HIV INFECTION 207122All SZGR 2.0 genes in this pathway
REACTOME HOST INTERACTIONS OF HIV FACTORS 13281All SZGR 2.0 genes in this pathway
REACTOME APC C CDH1 MEDIATED DEGRADATION OF CDC20 AND OTHER APC C CDH1 TARGETED PROTEINS IN LATE MITOSIS EARLY G1 7238All SZGR 2.0 genes in this pathway
REACTOME APC C CDC20 MEDIATED DEGRADATION OF MITOTIC PROTEINS 7340All SZGR 2.0 genes in this pathway
REACTOME AUTODEGRADATION OF CDH1 BY CDH1 APC C 6434All SZGR 2.0 genes in this pathway
REACTOME SCF BETA TRCP MEDIATED DEGRADATION OF EMI1 5132All SZGR 2.0 genes in this pathway
REACTOME IMMUNE SYSTEM 933616All SZGR 2.0 genes in this pathway
REACTOME ADAPTIVE IMMUNE SYSTEM 539350All SZGR 2.0 genes in this pathway
REACTOME CLASS I MHC MEDIATED ANTIGEN PROCESSING PRESENTATION 251156All SZGR 2.0 genes in this pathway
REACTOME ANTIGEN PROCESSING UBIQUITINATION PROTEASOME DEGRADATION 212129All SZGR 2.0 genes in this pathway
REACTOME S PHASE 10966All SZGR 2.0 genes in this pathway
REACTOME SCFSKP2 MEDIATED DEGRADATION OF P27 P21 5634All SZGR 2.0 genes in this pathway
REACTOME VIF MEDIATED DEGRADATION OF APOBEC3G 5230All SZGR 2.0 genes in this pathway
LAIHO COLORECTAL CANCER SERRATED UP 11271All SZGR 2.0 genes in this pathway
OUELLET CULTURED OVARIAN CANCER INVASIVE VS LMP UP 6940All SZGR 2.0 genes in this pathway
MATTIOLI MGUS VS PCL 11662All SZGR 2.0 genes in this pathway
SPIELMAN LYMPHOBLAST EUROPEAN VS ASIAN UP 479299All SZGR 2.0 genes in this pathway
SMITH TERT TARGETS UP 14591All SZGR 2.0 genes in this pathway
TARTE PLASMA CELL VS PLASMABLAST DN 309206All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 14HR DN 298200All SZGR 2.0 genes in this pathway
PELLICCIOTTA HDAC IN ANTIGEN PRESENTATION UP 6440All SZGR 2.0 genes in this pathway
GAVIN FOXP3 TARGETS CLUSTER T4 9469All SZGR 2.0 genes in this pathway
ZHENG BOUND BY FOXP3 491310All SZGR 2.0 genes in this pathway
MARSON BOUND BY FOXP3 STIMULATED 1022619All SZGR 2.0 genes in this pathway
MARSON BOUND BY FOXP3 UNSTIMULATED 1229713All SZGR 2.0 genes in this pathway
LIN MELANOMA COPY NUMBER UP 7353All SZGR 2.0 genes in this pathway
GRADE COLON CANCER UP 871505All SZGR 2.0 genes in this pathway
GRADE COLON AND RECTAL CANCER UP 285167All SZGR 2.0 genes in this pathway
YOSHIMURA MAPK8 TARGETS DN 366257All SZGR 2.0 genes in this pathway
SWEET LUNG CANCER KRAS UP 491316All SZGR 2.0 genes in this pathway
ZHAN VARIABLE EARLY DIFFERENTIATION GENES DN 3019All SZGR 2.0 genes in this pathway
CAIRO HEPATOBLASTOMA UP 207143All SZGR 2.0 genes in this pathway
LU EZH2 TARGETS UP 295155All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE LATE 1137655All SZGR 2.0 genes in this pathway
WAKABAYASHI ADIPOGENESIS PPARG RXRA BOUND 8D 882506All SZGR 2.0 genes in this pathway